Bioinformatics: LSCF Publications

  1. Fromm A., Schatz D., Ben-Dor S., Feldmesser E. & Vardi A. (2022). Complete Genome Sequence of Emiliania huxleyi Virus Strain M1, Isolated from an Induced E. huxleyi Bloom in Bergen, Norway.  Microbiology Resource Announcements. 2022 May , 11 (5).
  2. Kim J., Pewzner-Jung Y., Joseph T., Ben-Dor S. & Futerman A. H. (2022). Generation of a ceramide synthase 6 mouse lacking the DDRSDIE C-terminal motif.  PLoS ONE. 2022 Jul 18 , 17 (7).
  3. Leshkowitz D., Kedmi M., Fried Y., Pilzer D., Keren-Shaul H., Ainbinder E. & Dassa B. (2022). Exploring differential exon usage via short- and long-read RNA sequencing strategies.  Open Biology. 2022 Sept 28 , 12 (9).
  4. Turner M., Danino Y., Barshai M., Yacovzada N., Cohen Y., Olender T., Rotkopf R., Monchaud D., Hornstein E. & Orenstein Y. (2022). rG4detector, a novel RNA G-quadruplex predictor, uncovers their impact on stress granule formation.  Nucleic Acids Research. 2022 Nov 11 , 50 (20):11426-11441.
  5. Swain U., Friedlander G., Sehrawat U., Sarusi-Portuguez A., Rotkopf R., Ebert C., Paz-Elizur T., Dikstein R., Carell T., Geacintov N. E. & Livneh Z. (2021). TENT4A Non-Canonical Poly(A) Polymerase Regulates DNA-Damage Tolerance via Multiple Pathways That Are Mutated in Endometrial Cancer.  International Journal of Molecular Sciences. 2021 Jul 1 , 22 (13).
  6. Azuri I., Rosenhek-Goldian I., Regev-Rudzki N., Fantner G. & Cohen S. R. (2021). The role of convolutional neural networks in scanning probe microscopy: a review.  Beilstein Journal of Nanotechnology. 2021 Aug 13 , 12 :878-901.
  7. Goldfarb Y., Givony T., Dobeš J., Kadouri N., Zalayat I., Peligero-Cruz C., Damari G., Dassa B., Ben-Dor S., Gruper Y., Oftedal B. E., Bratland E., Erichsen M. M., Berger A., Avin A., Nevo S., Haljasorg U., Kuperman Y., Ulman A., Porat Z., Haffner-Krausz R., Atasoy U., Leshkowitz D., Husebye E. S. & Abramson J. (2021). Mechanistic dissection of dominant AIRE mutations in mouse models reveals AIRE autoregulation.  Journal of Experimental Medicine. 2021 Nov , 218 (11).
  8. Castro C., Johnson R. J., Kieffer B., Means J. A., Taylor A., Telford J., Thompson L. K., Sussman J. L., Prilusky J. & Theis K. (2021). A practical guide to teaching with Proteopedia.  Biochemistry and Molecular Biology Education. 2021 Jun 3 , 49 (5).
  9. Feldmesser E., Ben-Dor S. & Vardi A. (2021). An Emiliania huxleyi pan-transcriptome reveals basal strain specificity in gene expression patterns.  Scientific Reports. 2021 Oct 21 , 11 (1).
  10. Fellus-Alyagor L., Biton I. E., Dafni H., Bochner F., Rotkopf R., Dekel N. & Neeman M. (2021). Prediction of Ovarian Follicular Dominance by MRI Phenotyping of Hormonally Induced Vascular Remodeling.  Frontiers in Medicine. 2021 Aug 20 , 8 .
  11. Vardi A., Pri-Or A., Wigoda N., Grishchuk Y. & Futerman A. H. (2021). Proteomics analysis of a human brain sample from a mucolipidosis type IV patient reveals pathophysiological pathways.  Orphanet Journal of Rare Diseases. 2021 Jan 21 , 16 (1).
  12. Benjamin A., Kuperman Y., Eren N., Rotkopf R., Amitai M., Rossman H., Shilo S., Meir T., Keshet A., Nuttman-Shwartz O., Segal E. & Chen A. (2021). Stress-related emotional and behavioural impact following the first COVID-19 outbreak peak.  Molecular Psychiatry. 2021 Nov , 26 (11):6149-6158.
  13. Grunwald Y., Wigoda N., Sade N., Yaaran A., Torne T., Gosa S. C., Moran N. & Moshelion M. (2021). Arabidopsis leaf hydraulic conductance is regulated by xylem sap pH, controlled, in turn, by a P-type H + -ATPase of vascular bundle sheath cells.  The Plant journal : for cell and molecular biology. 2021 Apr , 106 (2):301-313.
  14. Goldfarb Y., Givony T., Dobeš J., Kadouri N., Zalayat I., Peligero-Cruz C., Damari G., Dassa B., Ben-Dor S., Gruper Y., Oftedal B. E., Bratland E., Erichsen M. M., Berger A., Avin A., Nevo S., Haljasorg U., Kuperman Y., Ulman A., Porat Z., Haffner-Krausz R., Atasoy U., Leshkowitz D., Husebye E. S. & Abramson J. (2021). Mechanistic dissection of dominant AIRE mutations in mouse models reveals AIRE autoregulation.  Journal of Experimental Medicine. 2021 Nov , 218 (11).
  15. Soll M., Goldshtein H., Rotkopf R., Russek-Blum N. & Gross Z. (2021). A Synthetic SOD/Catalase Mimic Compound for the Treatment of ALS.  Antioxidants. 2021 May 22 , 10 (6).
  16. Ofir-Birin Y., Ben Ami Pilo H., Camacho A. C., Rudik A., Rivkin A., Revach O., Nir N., Tamin T. B., Karam P. A., Kiper E., Peleg Y., Nevo R., Solomon A., Havkin-Solomon T., Rojas A., Rotkopf R., Porat Z., Avni D., Schwartz E., Zillinger T., Hartmann G., Di Pizio A., Ben Quashie N., Dikstein R., Gerlic M., Torrecilhas A. C., Levy C., Hoen E. N. M. N., Bowie A. G. & Regev-Rudzki N. (2021). Malaria parasites both repress host CXCL10 and use it as a cue for growth acceleration.  Nature Communications. 2021 Dec 1 , 12 (1).
  17. Graff van Creveld S., Ben-Dor S., Mizrachi A., Alcolombri U., Hopes A., Mock T., Rosenwasser S. & Vardi A. (2021). Biochemical Characterization of a Novel Redox-Regulated Metacaspase in a Marine Diatom.  Frontiers in Microbiology. 2021 Sept 8 , 12 .
  18. Daniel E., Maksimainen M. M., Smith N., Ratas V., Biterova E., Murthy S. N., Tanvir Rahman M., Kiema T. R., Sridhar S., Cordara G., Dalwani S., Venkatesan R., Prilusky J., Dym O., Lehtio L., Kristian Koski M., Ashton A. W., Sussman J. L. & Wierenga R. K. (2021). IceBear: An intuitive and versatile web application for research-data tracking from crystallization experiment to PDB deposition.  Acta Crystallographica Section D: Structural Biology. 2021 Feb 1 , 77 (2):151-163.
  19. Goldfarb Y., Givony T., Dobeš J., Kadouri N., Zalayat I., Peligero-Cruz C., Damari G., Dassa B., Ben-Dor S., Gruper Y., Oftedal B. E., Bratland E., Erichsen M. M., Berger A., Avin A., Nevo S., Haljasorg U., Kuperman Y., Ulman A., Porat Z., Haffner-Krausz R., Atasoy U., Leshkowitz D., Husebye E. S. & Abramson J. (2021). Mechanistic dissection of dominant AIRE mutations in mouse models reveals AIRE autoregulation.  Journal of Experimental Medicine. 2021 Nov , 218 (11).
  20. Zaidman D., Prilusky J., Cohen G., Resnick E., Barr H. & London N. (2021). An automatic pipeline for the design of irreversible derivatives identifies a potent SARS-CoV-2 M pro inhibitor.  Cell Chemical Biology. 2021 Dec 16 , 28 (12):1795-1806.